Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtctttgcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA

Basic information

species Arabidopsis thaliana
transcript AT3G09920.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os02g57660.2 (Oryza sativa), 3'ss of exon 5
----------gtttgtgactacttacatatccaccatctctgttttcacattatcttct--tagttttctccatgtctt-tgcgtagactctttgtccgtctgcccattgagc----------------------ttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
           |   | | |  | | | |||    |    || |   | ||| | |  |  ||| ||  || ||   || | | |      |    ||  || |  |   |||                       || | ||   |  || |||||||| |  | ||||||||| | ||  | ||||||||    || ||||||||||||||||| ||||| || |||||||| |||||  | || || || |
gttctgttttatgcttaaattttcagagatcatataagcgtgctagaaaattctttaatggtagattcttcgataaattatacattataagtaacaccacctacttagcaagcggaagttaaaaacatttcatgactctatatgatccttgcagGTTCTTTTACGAATGCTTCCAAAATATTACCATCATGTCCGTACTTATGAGAACACCCTCATAACTAAGTTTTTTGGCCTCCACAGGGTGAAGCCTTCTA

upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G050309_T01 (Zea mays), 3'ss of exon 4
-----gtttgtg-actacttacatatccaccatctct--gttttcacattatcttcttagttttctccatgtctttgcgtagactctttgtccgtctgccca-ttgagcttcc---agatttactg---tgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
      ||| |  |    ||||| |      || |||  | |||||   |   |   ||| ||  | ||||| |  |    | |  ||     |   ||  | |||| |||        | ||||    ||||||||||| |  | ||||||||| | ||  || |||||||    || ||||||||||||||||| ||||| || |||||||| |||||  | ||||| || |
gtccattttctatatggattacagagattgtatttcttagctttcatgattgttggatagattg-tgcatgtata-gtacggccatttgcctaggaagcgaaattgaacttttcatgactctactaccctgtagGTTCTTTTACGAATGCTTCCAAACTATTATGATCATGTCCGTACCTATGAGAACACCCTCATAACTAAGTTTTTTGGCCTCCACAGGGTGAAACCTTCTA

upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G06800.1 (Glycine max), 3'ss of exon 4
gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtctttgcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
              | ||    |  |    | ||||   | |||   |||  | ||||| |  |||||   |  |||         | ||   |   |  ||  | ||       |||||||||||| || ||||||||||| || ||||| ||||||||||||||||| || || || || || ||||| ||||| || ||||| || | ||| || |
------attggagcatatgcttagtaatgatatttt---agtattcacttgctcttctctacttcttt---ttcactaaaaaaaattgtgataaccaaattttgaaat-------gtagGTTCTTCTAAGAATGCTTCCAGACTATCATCACCATGTGAAGACATATGATAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTATACCTTCGA

upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 4
gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtctttgcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
     | |   |||        |  || |  || |||||||  ||||||  ||  | | | | | |     || | |     |     || |||          |  |||    ||||||||||||| || ||||||||||| || ||||| ||||||||||||||||| || || || || || ||||| ||||| || ||||| || |  || ||||
-----tcaagtctttggagcatat-attttagtgttcacatgctcttct--gtacttttcgt-tttcactataaaatacaaattgtaatgacca----------aattttgaaatgtagGTTCTTCTAAGAATGCTTCCAGACTATCATCACCATGTGAAGACATATGATAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTATTCCTTCAA

upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G34340.1 (Glycine max), 3'ss of exon 3
gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtcttt--gcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
            ||| || |  |  |    | | ||   |||  | |  || |||||| | ||  |||  |  || | |  |  | |   || |||          | ||||    || |||| ||||| || ||||||||||| || ||||||||||||||| ||||||| || || || || || ||||| ||||| || ||||| || ||||| ||||
----------ttttaaatgtttagtaatgatatcttagtatttacctgcta-ttttctacttgcttttcagtataaaatactaattcccttgtcca----------aaatttgacatgcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA

upper sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv08s0007g04700.t01 (Vitis vinifera), 3'ss of exon 3
gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtctttgcgtagactctttgt--ccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
                 |  | |  |     ||||    | | | |  ||  || | | | | | |||| ||  |    |||      |||   ||| ||  ||     ||||     ||||||||| || | ||||||||| | || ||||||||||||  | |  |||||||||| ||||| || ||||| ||||| |||||||| |||||||| ||||
----------------tttactagaactgaagtttatctaatttttatttccttcttttcctttttttgggttaaaagattgaagttctctagtcatcgaagttgtgttttta-----tagGTTCTTTTGCGAATGCTTCCAAACTATCATCATCATGTGCGGTCCCATGAGAACACACTCATAACAAAATTTTTTGGTCTTCACAGGATCAAACCTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
                                        agattta  TA-rich tract